Related papers: On the quartet distance given partial information
In this article we prove that the distance $d_{\mathrm{MP}}(T_1,T_2) = k$ between two unrooted binary phylogenetic trees $T_1, T_2$ on the same set of taxa can be defined by a character that is convex on one of $T_1, T_2$ and which has at…
Phylogenetic networks are rooted directed acyclic graphs that represent evolutionary relationships between species whose past includes reticulation events such as hybridisation and horizontal gene transfer. To search the space of…
Labeling schemes seek to assign a short label to each node in a network, so that a function on two nodes can be computed by examining their labels alone. For the particular case of trees, optimal bounds (up to low order terms) were recently…
Statistically consistent estimation of phylogenetic trees or gene trees is possible if pairwise sequence dissimilarities can be converted to a set of distances that are proportional to the true evolutionary distances. Susko et al. (2004)…
Estimating phylogenetic trees is an important problem in evolutionary biology, environmental policy and medicine. Although trees are estimated, their uncertainties are discarded by mathematicians working in tree space. Here we explicitly…
In the infinite regular tree $\mathbb{T}_{q+1}$ with $q \in \mathbb{Z}_{\ge 2}$, we consider families $\{\mu_u^n\}$, indexed by vertices $u$ and nonnegative integers ("discrete time steps") $n$, of probability measures such that $\mu_u^n(v)…
In the longest plane spanning tree problem, we are given a finite planar point set $\mathcal{P}$, and our task is to find a plane (i.e., noncrossing) spanning tree for $\mathcal{P}$ with maximum total Euclidean edge length. Despite more…
An explicit bound is given for the Kolmogorov distance between a mixture of normal distributions and a normal distribution with properly chosen parameter values. A random variable X has a mixture of normal distributions if its conditional…
Species trees represent the historical divergences of populations or species, while gene trees trace the ancestry of individual gene copies sampled within those populations. In cases involving rapid speciation, gene trees with topologies…
It is a classical result that any finite tree with positively weighted edges, and without vertices of degree 2, is uniquely determined by the weighted path distance between each pair of leaves. Moreover, it is possible for a (small) strict…
A classical problem in phylogenetic tree analysis is to decide whether there is a phylogenetic tree $T$ that contains all information of a given collection $\cP$ of phylogenetic trees. If the answer is "yes" we say that $\cP$ is compatible…
For a set $P$ of $n$ points in general position in the plane, the flip graph $F(P)$ has a vertex for each non-crossing spanning tree on $P$ and an edge between any two spanning trees that can be transformed into each other by one edge flip.…
In this paper we show how to find nearly optimal embeddings of large trees in several natural classes of graphs. The size of the tree T can be as large as a constant fraction of the size of the graph G, and the maximum degree of T can be…
Phylogenetic trees represent the evolutionary relationships between extant lineages, where extinct or non-sampled lineages are omitted. Extending the work of Stadler and collaborators, this paper focuses on the branch lengths in…
For $d\ge 2$ and an odd prime power $q$, consider the vector space $\mathbb{F}_q^d$ over the finite field $\mathbb{F}_q$, where the distance between two points $(x_1,\ldots,x_d)$ and $(y_1,\ldots,y_d)$ is defined as $\sum_{i=1}^d…
Ptolemy's inequality is a classic relationship between the distances among four points in Euclidean space. Another relationship between six distances is the 4-point condition, an inequality satisfied by the lengths of the six paths that…
The Hausdorff distance is a relatively new measure of similarity of graphs. The notion of the Hausdorff distance considers a special kind of a common subgraph of the compared graphs and depends on the structural properties outside of the…
We consider the notion of information distance between two objects x and y introduced by Bennett, G\'acs, Li, Vitanyi, and Zurek [1] as the minimal length of a program that computes x from y as well as computing y from x, and study…
This paper investigates the large deviation problem in the sample path space of the nearest-neighbor random walks on regular trees. We establish the sample path large deviation principle for the law of the distance from a nearest random…
We establish tight bi-Lipschitz bounds certifying quasi-universality (universality up to a constant factor) for various distances between Reeb graphs: the interleaving distance, the functional distortion distance, and the functional…